miRNA display CGI


Results 1 - 20 of 22 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
13188 3' -55.1 NC_003401.1 + 14245 0.66 0.923144
Target:  5'- cCGAACGccaggGGCAGGCG--GGAUGAUCc- -3'
miRNA:   3'- -GCUUGC-----UCGUCCGUugCCUGCUGGau -5'
13188 3' -55.1 NC_003401.1 + 84347 0.66 0.917446
Target:  5'- gCGGACGcacGguGGCGGCuGGACcGCCUu -3'
miRNA:   3'- -GCUUGCu--CguCCGUUG-CCUGcUGGAu -5'
13188 3' -55.1 NC_003401.1 + 116266 0.66 0.911504
Target:  5'- uCGGcucCGGGguGGCuccggguGgGGGCGGCCUAa -3'
miRNA:   3'- -GCUu--GCUCguCCGu------UgCCUGCUGGAU- -5'
13188 3' -55.1 NC_003401.1 + 17567 0.66 0.911504
Target:  5'- --cGCGAGCGGGCGGCacACGAUCc- -3'
miRNA:   3'- gcuUGCUCGUCCGUUGccUGCUGGau -5'
13188 3' -55.1 NC_003401.1 + 18172 0.66 0.911504
Target:  5'- uGggUGGGCAGGaCGGgucCGGACuGGCCc- -3'
miRNA:   3'- gCuuGCUCGUCC-GUU---GCCUG-CUGGau -5'
13188 3' -55.1 NC_003401.1 + 49726 0.66 0.905316
Target:  5'- uCGuGCGGGgcCAGGCGcgcgGCGGAUGuCCUGg -3'
miRNA:   3'- -GCuUGCUC--GUCCGU----UGCCUGCuGGAU- -5'
13188 3' -55.1 NC_003401.1 + 89682 0.66 0.898887
Target:  5'- gGAGCGGGaggAGGCAG-GGGCGucCCUGg -3'
miRNA:   3'- gCUUGCUCg--UCCGUUgCCUGCu-GGAU- -5'
13188 3' -55.1 NC_003401.1 + 121683 0.66 0.892219
Target:  5'- gCGAauGCGAuGCGGGgGAUgccggGGACGACCc- -3'
miRNA:   3'- -GCU--UGCU-CGUCCgUUG-----CCUGCUGGau -5'
13188 3' -55.1 NC_003401.1 + 132496 0.66 0.892219
Target:  5'- gCGGGCccGGGCcGGCGggGCGGAgGGCCg- -3'
miRNA:   3'- -GCUUG--CUCGuCCGU--UGCCUgCUGGau -5'
13188 3' -55.1 NC_003401.1 + 13225 0.67 0.884612
Target:  5'- uGGACGuGCggAGGCucuuguggaugcuGACGGACG-CCUGg -3'
miRNA:   3'- gCUUGCuCG--UCCG-------------UUGCCUGCuGGAU- -5'
13188 3' -55.1 NC_003401.1 + 84048 0.67 0.878181
Target:  5'- uGGGCaaggGGGCGGGCAGCGGcauuccCGGCuCUAa -3'
miRNA:   3'- gCUUG----CUCGUCCGUUGCCu-----GCUG-GAU- -5'
13188 3' -55.1 NC_003401.1 + 8931 0.67 0.877454
Target:  5'- gGAACGGuuaucacgggacGCAGGCGcccugugGCGG-CGACCg- -3'
miRNA:   3'- gCUUGCU------------CGUCCGU-------UGCCuGCUGGau -5'
13188 3' -55.1 NC_003401.1 + 86025 0.68 0.839226
Target:  5'- gGAAgGAGCAGGCugugucaagccAGgGGGCG-CCUGc -3'
miRNA:   3'- gCUUgCUCGUCCG-----------UUgCCUGCuGGAU- -5'
13188 3' -55.1 NC_003401.1 + 91105 0.68 0.839226
Target:  5'- aGAGC-AGCAGGCAcaGGcACGACCc- -3'
miRNA:   3'- gCUUGcUCGUCCGUugCC-UGCUGGau -5'
13188 3' -55.1 NC_003401.1 + 117902 0.69 0.795434
Target:  5'- cCGAAcCGGGCGcggggguucGGCGGCGGugGcACCg- -3'
miRNA:   3'- -GCUU-GCUCGU---------CCGUUGCCugC-UGGau -5'
13188 3' -55.1 NC_003401.1 + 103290 0.69 0.795434
Target:  5'- gGAACGGcGguGGCcuCGGACGGCg-- -3'
miRNA:   3'- gCUUGCU-CguCCGuuGCCUGCUGgau -5'
13188 3' -55.1 NC_003401.1 + 109357 0.69 0.757614
Target:  5'- aCGuACGGGCucGGUgccuggGACGGACGACCc- -3'
miRNA:   3'- -GCuUGCUCGu-CCG------UUGCCUGCUGGau -5'
13188 3' -55.1 NC_003401.1 + 21622 0.7 0.747848
Target:  5'- --cGCG-GCAcGcGCAGCGGACGGCCg- -3'
miRNA:   3'- gcuUGCuCGU-C-CGUUGCCUGCUGGau -5'
13188 3' -55.1 NC_003401.1 + 30348 0.7 0.728013
Target:  5'- gGAGCGAGgcCAGGUugaggcgccgGugGGGCGAUCUGg -3'
miRNA:   3'- gCUUGCUC--GUCCG----------UugCCUGCUGGAU- -5'
13188 3' -55.1 NC_003401.1 + 57739 0.74 0.512837
Target:  5'- cCGcGGCGAGCGGGUAuaccUGGGCGGCCa- -3'
miRNA:   3'- -GC-UUGCUCGUCCGUu---GCCUGCUGGau -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.